Evidence map›Paper›PMID 33292386›Full record

ArticleGenome biology2020

Intronic tRNAs of mitochondrial origin regulate constitutive and alternative splicing.

Simon M Hoser, Anne Hoffmann, Andreas Meindl, Maximilian Gamper, Jörg Fallmann, Stephan H Bernhart, Lisa Müller, Melanie Ploner, Matthias Misslinger, Leopold Kremser and 5 more

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Genome biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing papers in PubMed
1.2field-weighted citation impact, top 22% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

6 citing papers in PubMed, 17 citations in OpenAlex.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Repetitive Elements in Humans.International journal of molecular sciences · 2021
    Review
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

15 authors at 5 institutions in 2 countries.

Simon M HoserDivision of Genomics and RNomics, Biocenter, Medical University of Innsbruck, 6020, Innsbruck, Austria. simon.hoser@i-med.ac.at.ORCID 0000-0002-1275-9984
Anne HoffmannHelmholtz Institute for Metabolic, Obesity and Vascular Research (HI-MAG) of the Helmholtz Zentrum München at the University of Leipzig and University Hospital Leipzig, Philipp-Rosenthal-Str. 27, 04103, Leipzig, Germany.
Andreas MeindlDivision of Genomics and RNomics, Biocenter, Medical University of Innsbruck, 6020, Innsbruck, Austria.
Maximilian GamperDivision of Genomics and RNomics, Biocenter, Medical University of Innsbruck, 6020, Innsbruck, Austria.
Jörg FallmannBioinformatics Group, Department of Computer Science and Interdisciplinary Center for Bioinformatics, Leipzig University, 04107, Leipzig, Germany.
Stephan H BernhartBioinformatics Group, Department of Computer Science and Interdisciplinary Center for Bioinformatics, Leipzig University, 04107, Leipzig, Germany.
Lisa MüllerInstitute for Virology, Medical Faculty Heinrich Heine University Düsseldorf, 40225, Düsseldorf, Germany.
Melanie PlonerDivision of Genomics and RNomics, Biocenter, Medical University of Innsbruck, 6020, Innsbruck, Austria.
Matthias MisslingerDivision of Molecular Biology, Biocenter, Medical University of Innsbruck, Innsbruck, Austria.
Leopold KremserDivision of Clinical Biochemistry, Protein Micro-Analysis Facility, Biocenter, Medical University of Innsbruck, Innsbruck, Austria.
Herbert LindnerDivision of Clinical Biochemistry, Protein Micro-Analysis Facility, Biocenter, Medical University of Innsbruck, Innsbruck, Austria.
Stephan GeleyInstitute of Pathophysiology, Biocenter, Medical University of Innsbruck, 6020, Innsbruck, Austria.
Heiner SchaalInstitute for Virology, Medical Faculty Heinrich Heine University Düsseldorf, 40225, Düsseldorf, Germany.
Peter F StadlerBioinformatics Group, Department of Computer Science and Interdisciplinary Center for Bioinformatics, Leipzig University, 04107, Leipzig, Germany.
Alexander HuettenhoferDivision of Genomics and RNomics, Biocenter, Medical University of Innsbruck, 6020, Innsbruck, Austria. alexander.huettenhofer@i-med.ac.at.
Innsbruck Medical University · ATHeinrich Heine University Düsseldorf · DELeipzig University · DEHelmholtz Zentrum München · DEMax Planck Institute for Mathematics in the Sciences · DE

Funding

Austrian Science Fund FWF P 32612
6 · The paper itself

Abstract

backgroundThe presence of nuclear mitochondrial DNA (numtDNA) has been reported within several nuclear genomes. Next to mitochondrial protein-coding genes, numtDNA sequences also encode for mitochondrial tRNA genes. However, the biological roles of numtDNA remain elusive.

resultsEmploying in silico analysis, we identify 281 mitochondrial tRNA homologs in the human genome, which we term nimtRNAs (nuclear intronic mitochondrial-derived tRNAs), being contained within introns of 76 nuclear host genes. Despite base changes in nimtRNAs when compared to their mtRNA homologs, a canonical tRNA cloverleaf structure is maintained. To address potential functions of intronic nimtRNAs, we insert them into introns of constitutive and alternative splicing reporters and demonstrate that nimtRNAs promote pre-mRNA splicing, dependent on the number and positioning of nimtRNA genes and splice site recognition efficiency. A mutational analysis reveals that the nimtRNA cloverleaf structure is required for the observed splicing increase. Utilizing a CRISPR/Cas9 approach, we show that a partial deletion of a single endogenous nimtRNA

conclusionsWe propose that nimtRNAs, along with associated protein factors, can act as a novel class of intronic splicing regulatory elements in the human genome by participating in the regulation of splicing.

Indexed as

Alternative SplicingIntronsAdaptor Proteins, Signal TransducingCRISPR-Cas SystemsDNA-Binding ProteinsDNA Mutational AnalysisExonsHumansMitochondriaRNA-Binding ProteinsRNA, MessengerRNA Splice SitesRNA SplicingRNA, TransferAdaptor Proteins, Signal TransducingDNA-Binding ProteinsKHDRBS1 protein, humanPPFIBP1 protein, humanRNA-Binding ProteinsRNA, MessengerRNA Splice SitesRNA, TransferAlternative splicingConstitutive splicingIntronic splicing enhancer (ISE)Mitochondrial tRNAnimtRNAnumtDNASplicingSplicing regulatory elementtRNAtRNA-lookalikes

Identifiers

PMID33292386
PMCPMC7722341
OpenAlexW3113127824

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.